bio-ucsc-api 0.2.0 → 0.2.1

data/spec/taegut1_spec.rb

@@ -0,0 +1,768 @@
+require "bio-ucsc"
+require "pp"
+
+describe "Bio::Ucsc::TaeGut1" do
+
+  before(:all) do
+    Bio::Ucsc::TaeGut1::DBConnection.connect
+  end
+
+  describe "Bio::Ucsc::TaeGut1::All_est" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::All_est.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::All_mrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::All_mrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Author" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Author.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::BlastHg18KG" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::BlastHg18KG.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Cds" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Cds.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Cell" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Cell.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ChainGalGal3" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::ChainGalGal3.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ChainGalGal3Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::ChainGalGal3Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ChainHg19" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::ChainHg19.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ChainHg19Link" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::ChainHg19Link.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ChromInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::ChromInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Description" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Description.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Development" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Development.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::EnsGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::EnsGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::EnsGtp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::EnsGtp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::EnsPep" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::EnsPep.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Est" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::Est.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::EstOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::EstOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Gap" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::Gap.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbCdnaInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbCdnaInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbExtFile" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbExtFile.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbLoaded" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbLoaded.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbMiscDiff" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbMiscDiff.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GbWarn" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GbWarn.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Gc5Base" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Gc5Base.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GeneName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GeneName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Genscan" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Genscan.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GenscanPep" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GenscanPep.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::GenscanSubopt" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::GenscanSubopt.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Gold" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::Gold.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Grp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Grp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::HgFindSpec" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::HgFindSpec.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::History" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::History.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ImageClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::ImageClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::IntronEst" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::IntronEst.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Keyword" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Keyword.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Library" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Library.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Mrna" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::Mrna.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::MrnaClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::MrnaClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::MrnaOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::MrnaOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::NetGalGal3" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::NetGalGal3.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::NetHg19" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::NetHg19.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::NscanGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::NscanGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::NscanPep" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::NscanPep.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Organism" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Organism.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::ProductName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::ProductName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Quality" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Quality.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefFlat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefFlat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefLink" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefLink.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefSeqAli" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefSeqAli.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefSeqStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefSeqStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::RefSeqSummary" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::RefSeqSummary.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Rmsk" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrW:1-10,000,000")
+        result = Bio::Ucsc::TaeGut1::Rmsk.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Sex" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Sex.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::SimpleRepeat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::SimpleRepeat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Source" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Source.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TableDescriptions" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TableDescriptions.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::Tissue" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::Tissue.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TrackDb" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TrackDb.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapAlnMRna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapAlnMRna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapAlnRefSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapAlnRefSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapAlnSplicedEst" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapAlnSplicedEst.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapAlnUcscGenes" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapAlnUcscGenes.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapInfoMRna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapInfoMRna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapInfoRefSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapInfoRefSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapInfoSplicedEst" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapInfoSplicedEst.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::TransMapInfoUcscGenes" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::TransMapInfoUcscGenes.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::WindowmaskerSdust" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::WindowmaskerSdust.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::XenoMrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::XenoMrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::XenoRefFlat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::XenoRefFlat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::XenoRefGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::XenoRefGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::TaeGut1::XenoRefSeqAli" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::TaeGut1::XenoRefSeqAli.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+end